GitHub
BioPandas
BioPandas: Working with molecular structures in pandas DataFrames - Published in JOSS (2017)
DeepEquilibriumNetworks
Implicit Layer Machine Learning via Deep Equilibrium Networks, O(1) backpropagation with accelerated convergence.
singlem
Novelty-inclusive microbial (and now dsDNA phage) community profiling of shotgun metagenomes
https://github.com/alleninstitute/openscope_databook
OpenScope databook: a collaborative, versioned, data-centric collection of foundational analyses for reproducible systems neuroscience 🐁🧠🔬🖥️📈
abundancematching
A Python package for subhalo abundance matching (SHAM) with scatter.
@stdlib/blas-ext-base-gsumkbn2
Calculate the sum of strided array elements using a second-order iterative Kahan–Babuška algorithm.
@stdlib/blas-ext-base-dcusumkbn
Calculate the cumulative sum of double-precision floating-point strided array elements using an improved Kahan–Babuška algorithm.
https://github.com/blockresearchgroup/compas_tno
Solvers for finding admissible thrust networks in vaulted masonry structures
anonymouus
Python package to replace identifiable strings in multiple files and folders at once.
https://github.com/bodenmillergroup/steinbock
A toolkit for processing multiplexed tissue images
tongji-undergrad-thesis
:page_facing_up: 同济大学本科生毕业设计论文模板 | Tongji University Undergraduate Thesis Template | Overleaf / Mac / Linux / Windows / Workshop / Docker
seismic-transfer-learning
Deep-learning seismic facies on state-of-the-art CNN architectures
pyprophet
PyProphet: Semi-supervised learning and scoring of OpenSWATH results.
https://github.com/alleninstitute/scrattch.hicat
Hierarchical, iterative clustering for analysis of transcriptomics data in R
@stdlib/stats-base-dvariancepn
Calculate the variance of a double-precision floating-point strided array using a two-pass algorithm.
coldpool
Cold pool area and temperature data products from eastern Bering Sea, northern Bering Sea, Gulf of Alaska, and Aleutian Islands bottom trawl surveys.
funbiogeo
:package: R package to streamline functional biogeography workflows and provide publication-ready plots
@stdlib/stats-base-variancetk
Calculate the variance of a strided array using a one-pass textbook algorithm.
flowio
A Python library for reading and writing Flow Cytometry Standard (FCS) files
@stdlib/blas-ext-base-ssumkbn
Calculate the sum of single-precision floating-point strided array elements using an improved Kahan–Babuška algorithm.
@stdlib/random-streams-box-muller
Create a readable stream for generating pseudorandom numbers drawn from a standard normal distribution using the Box-Muller transform.
DASSL
Solves stiff differential algebraic equations (DAE) using variable stepsize backwards finite difference formula (BDF) in the SciML scientific machine learning organization
paddlevideo
Awesome video understanding toolkits based on PaddlePaddle. It supports video data annotation tools, lightweight RGB and skeleton based action recognition model, practical applications for video tagging and sport action detection.
complexitymeasures.jl
Estimators for probabilities, entropies, and other complexity measures derived from data in the context of nonlinear dynamics and complex systems
@stdlib/stats-base-stdevwd
Calculate the standard deviation of a strided array using Welford's algorithm.
parsnp
Parsnp was designed to align the core genome of hundreds to thousands of bacterial genomes within a few minutes to few hours. Input can be both draft assemblies and finished genomes, and output includes variant (SNP) calls, core genome phylogeny and multi-alignments. Parsnp leverages contextual information provided by multi-alignments surrounding SNP sites for filtration/cleaning, in addition to existing tools for recombination detection/filtration and phylogenetic reconstruction.
@stdlib/blas-ext-base-gapxsumkbn
Add a constant to each strided array element and compute the sum using an improved Kahan–Babuška algorithm.
@stdlib/stats-base-dmeanstdevpn
Calculate the mean and standard deviation of a double-precision floating-point strided array using a two-pass algorithm.
pheno-ranker-ui
The web ui (R-Shiny application) for Pheno-Ranker, a tool designed for performing semantic similarity analysis on phenotypic data structured in JSON format, such as Beacon v2 Models or Phenopackets v2
detectmitigate
Using neural networks to detect effects of rapid climate mitigation
remind2
The remind2 package contains the REMIND-specific routines for data and model output manipulation.
@stdlib/blas-ext-base-gcusumkbn
Calculate the cumulative sum of strided array elements using an improved Kahan–Babuška algorithm.
pypro4sail
Python code for running ProspectD and 4SAIL Rasiative Transfer Models
https://github.com/biopragmatics/biomappings
🗺️ Community curated and predicted equivalences and related mappings between named biological entities that are not available from primary sources.
k-means-constrained
K-Means clustering - constrained with minimum and maximum cluster size. Documentation: https://joshlk.github.io/k-means-constrained
@stdlib/blas-ext-base-scusumkbn
Calculate the cumulative sum of single-precision floating-point strided array elements using an improved Kahan–Babuška algorithm.
@stdlib/stats-base-dsmeanpn
Calculate the arithmetic mean of a single-precision floating-point strided array using a two-pass error correction algorithm with extended accumulation and returning an extended precision result.
Trash AI
Trash AI: A Web GUI for Serverless Computer Vision Analysis of Images of Trash - Published in JOSS (2023)
cudem
CUDEM contains scripts, programs and API for use in generating and processing Digital Elevation Models
radioactivedecay
radioactivedecay: A Python package for radioactive decay calculations - Published in JOSS (2022)
bulma-helpers
Library with Functional / Atomic CSS classes for Bulma framework
cvat
Annotate better with CVAT, the industry-leading data engine for machine learning. Used and trusted by teams at any scale, for data of any scale.
matchzoo
Facilitating the design, comparison and sharing of deep text matching models.
https://github.com/althonos/pyfamsa
Cython bindings and Python interface to FAMSA, an algorithm for ultra-scale multiple sequence alignments.
blas-ext-base-dcusumkbn2
Calculate the cumulative sum of double-precision floating-point strided array elements using a second-order iterative Kahan–Babuška algorithm.
RootsAndPoles
Julia implementation of the global complex root and pole finding (GRPF) algorithm.
GlobalSearchRegression
Julia's HPC command for automatic feature/model selection using all-subset-regression approaches
pychastic
Pychastic is a stochastic differential equations integrator written entirely in python.
lowtran
LOWTRAN atmospheric absorption extinction, scatter and irradiance model--in Python and Matlab
quara
Quara, which stands for "Quantum Characterization", is an open-source library for characterizing elementary quantum operations.
poolgen
Quantitative and population genetics analyses of populations, pools, half-sib/full-sib families, and polyploids
https://github.com/astroml/gatspy
General tools for Astronomical Time Series in Python
qsdsan
Quantitative Sustainable Design (QSD) of sanitation and resource recovery systems.
stats-base-nanmeanwd
Calculate the arithmetic mean of a strided array, ignoring NaN values and using Welford's algorithm.
https://github.com/althonos/pyjess
Cython bindings and Python interface to Jess, a 3D template matching software for protein structures.
